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| SNP Genotyping Services |
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Single Nucleotide Polymorphism (SNP) genotyping analysis is used for genome-wide association, genetic linkage and copy number variation analysis. The most appropriate and cost-effective technology for any given project depends on the purpose of the study, the number of loci to be examined and the size of the sample set. GPCL provides full service on several different SNP technologies, including both user-defined and manufacturer-defined content. Please contact the Genomics Manager, Debby Hollingshead, to discuss the best application for your project and to receive sample submission information. You must be a registered facility user before submitting any samples for processing. If your laboratory is new to our services, please register here. GPCL SNP Platforms User Defined Content Taqman SNP platform. The Taqman SNP platform is ideal for projects requiring from 1- 20 SNPs on hundreds to thousands of samples. Applied Biosystems has a growing selection of inventoried and designed assays, which currently includes about 190,000 SNPs for gene association and functional SNP analysis. For SNPs not available as inventoried assays, Applied Biosystems also has an Assays-by-Design service available to assist with the design of SNP assays. A handful of assays specifically designed to measure copy number variation at particular loci are also available. >>For more information on Taqman and how to obtain this service please see our Taqman page. Sequenom iPLEX assay For projects involving 10 to hundreds of SNPS on hundreds to thousands of samples, the iPLEX Gold assay combines the benefits of a simple and robust single-base primer extension biochemistry with the sensitivity and accuracy of MALDI-TOF MS detection. Assays can be multiplexed up to 36 SNPs in one individual reaction. The assay design is automated and straight forward, all oligonucleotides are unlabeled and of standard quality. >>For a technology overview and information on how to access this service please see our iPLEX page. Illumina® GoldenGate® Based on locus specific amplification followed by hybridization to a universal array, the GoldenGate assay is ideal for examining 384 to 1536 loci in 480 to thousands of samples with minimal DNA expenditure. More SNP loci may be assayed using multiple iterations. >>For a technology overview and information on how to access this service please see our GoldenGate page. Illumina® iSelect Custom Panels Based on the Illumina® Infinum assay, these custom content BeadArrays interrogate 12 samples each. For more information: Illumina.com or contact GPCL. Manufacturer Defined Content Affymetrix Arrays for whole genome DNA analysis Affymetrix has a number of fixed content arrays for whole genome DNA analysis. These include, the 10K mapping array, the Genome Wide SNP 5.0 and 6.0 as well as the 100K and 500K array sets. Please see Affymetrix.com for most complete and up to date information on these products. >>For a technology overview and information on how to access this service please see our Affymetrix SNP page. Illumina Infinium® Utilizing whole genome amplification followed by hybridization and single base extension, the Illumina Infinium platform is available in multiple loci formats ranging from 240,000 to 1 million SNPs. Please see Illumina.com for the most current product information. Minimum project size is 8 samples. >>For a technology overview and information on how to access this service please see our Infinium page. Illumina® GoldenGate® Illumina® GoldenGate® assay is available for a number of set content panels. Please see Illumina.com for the most current listing. This platform is suitable for 96 or more samples. >>For a technology overview and information on how to access this service please see our GoldenGate page. |